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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ), 'gf_id' => 'HOM05D001092', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001092' ), 'data_identifier' => 'HOM05D001092', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001092', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '562', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p04720' => 'bna', 'A08p05240' => 'bna', 'A08p06860' => 'bna', 'A08p12890' => 'bna', 'A08p12900' => 'bna', 'Aa31LG10G5640' => 'aar', 'Aa31LG2G13220' => 'aar', 'Aa31LG2G13560' => 'aar', 'Aa31LG2G13570' => 'aar', 'Aa31LG2G13580' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.1817' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1818' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.876' => 'aag', 'Actinidia03403' => 'ach', 'Actinidia03404' => 'ach', 'Actinidia03405' => 'ach', 'Actinidia03406' => 'ach', 'Actinidia03407' => 'ach', 'Actinidia04645' => 'ach', 'Actinidia18468' => 'ach', 'Actinidia18490' => 'ach', 'Actinidia18491' => 'ach', 'Actinidia22701' => 'ach', 'Actinidia25929' => 'ach', 'Actinidia28455' => 'ach', 'Actinidia33717' => 'ach', 'Ah.03g145680' => 'amhyb', 'Ah.12g053800' => 'amhyb', 'AL1G54650' => 'aly', 'AL7G37590' => 'aly', 'Aqoxy1G03096' => 'aox', 'Aqoxy2G01196' => 'aox', 'Aqoxy2G02587' => 'aox', 'Aqoxy2G02588' => 'aox', 'Aqoxy322s001' => 'aox', 'Aqoxy322s002' => 'aox', 'Aqoxy322s003' => 'aox', 'Aqoxy322s004' => 'aox', 'Aqoxy3G02231' => 'aox', 'Aqoxy3G02588' => 'aox', 'Aqoxy4G01581' => 'aox', 'Aqoxy4G01582' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CK710' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VA958' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.999YA8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIIC2U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DK6U4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EK4EYW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G3NGVJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5GJM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MKB6CT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NM6FQB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1CTT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PHJ2IJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4ZCSK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZQ62U7' => 'arhy', 'AT1G48090' => 'ath', 'AT4G17140' => 'ath', 'ATR0730G121' => 'atr', 'ATR0829G162' => 'atr', 'ATR1019G001' => 'atr', 'ATR1145G004' => 'atr', 'ATR1145G023' => 'atr', 'ATR1145G054' => 'atr', 'ATR1145G059' => 'atr', 'ATR1145G101' => 'atr', 'Atru.chr4.3074' => 'acertr', 'Atru.chr4.3075' => 'acertr', 'Atru.chr4.3076' => 'acertr', 'Atru.chr4.3093' => 'acertr', 'Atru.chr9.1144' => 'acertr', 'Atru.chr9.1145' => 'acertr', 'AUR62003914' => 'cqu', 'AUR62007201' => 'cqu', 'AUR62018801' => 'cqu', 'AUR62038227' => 'cqu', 'BcaB04g17465' => 'bca', 'BcaB07g33792' => 'bca', 'BcaC07g37171' => 'bca', 'BcaC07g37172' => 'bca', 'BcaC07g38039' => 'bca', 'BcaC07g38054' => 'bca', 'BcaNung06642' => 'bca', 'BolC6t35374H' => 'bol', 'BolC8t47372H' => 'bol', 'BolC8t48437H' => 'bol', 'BraA06t23675Z' => 'bra', 'BraA08t32540Z' => 'bra', 'BraA08t32704Z' => 'bra', 'BraA08t33273Z' => 'bra', 'C06p02470' => 'bna', 'C08p05520' => 'bna', 'CAN.G1445.5' => 'can', 'CAN.G1445.6' => 'can', 'CAN.G1445.7' => 'can', 'CAN.G397.5' => 'can', 'CAN.G424.45' => 'can', 'CAN.G824.4' => 'can', 'CAN.G824.5' => 'can', 'CANSAT21G2480' => 'cansat', 'CANSAT78G0281' => 'cansat', 'CARHR037730' => 'chi', 'CARHR223710' => 'chi', 'Carub.0001s3719' => 'cru', 'Carub.0007s2427' => 'cru', 'Ca_21394_v3' => 'car', 'Ca_21395_v3' => 'car', 'Ca_21396_v3' => 'car', 'Ca_21416_v3' => 'car', 'Ca_24623_v3' => 'car', 'Ca_24624_v3' => 'car', 'Ca_26022_v3' => 'car', 'Ca_30451_v3' => 'car', 'Ca_30452_v3' => 'car', 'Ca_30453_v3' => 'car', 'Ca_30454_v3' => 'car', 'CBR_g40196' => 'cbr', 'CBR_g4878' => 'cbr', 'Cc03_g00400' => 'ccan', 'Cc08_g01550' => 'ccan', 'CDE02G0328' => 'cde', 'CDE02G0350' => 'cde', 'CDE02G0574' => 'cde', 'CDE02G0669' => 'cde', 'CDE02G1757' => 'cde', 'CDE02G1948' => 'cde', 'CDE02G3029' => 'cde', 'CDE02G4159' => 'cde', 'CDE08G1687' => 'cde', 'CDE11G0104' => 'cde', 'Cfa012359' => 'cfa', 'Cfa022612' => 'cfa', 'Cfa027332' => 'cfa', 'Ciclev10004114m.g' => 'ccl', 'Ciclev10018424m.g' => 'ccl', 'Ciclev10024056m.g' => 'ccl', 'CiPaw.01G132700' => 'cil', 'CiPaw.12G058300' => 'cil', 'CiPaw.12G058400' => 'cil', 'ClCG05G006770' => 'cla', 'ClCG09G012500' => 'cla', 'ClCG09G012520' => 'cla', 'COL.COLO4_06704' => 'col', 'COL.COLO4_06705' => 'col', 'COL.COLO4_34529' => 'col', 'COL.COLO4_34530' => 'col', 'COL.COLO4_34531' => 'col', 'Cpa.g.sc146.55' => 'cpa', 'Cpa.g.sc146.58' => 'cpa', 'Cpa.g.sc146.59' => 'cpa', 'Cpa.g.sc146.60' => 'cpa', 'Cpa.g.sc146.61' => 'cpa', 'Cpa.g.sc146.62' => 'cpa', 'Cpa.g.sc16.7' => 'cpa', 'Cpa.g.sc98.40' => 'cpa', 'Cpa.g.sc98.42' => 'cpa', 'Cpa.g.sc98.44' => 'cpa', 'Cpa.g.sc98.45' => 'cpa', 'Cpa.g.sc98.46' => 'cpa', 'Cpa.g.sc98.48' => 'cpa', 'Cpa.g.sc98.50' => 'cpa', 'Cpa.g.sc98.53' => 'cpa', 'Cpa.g.sc98.54' => 'cpa', 'Cpa.g.sc98.55' => 'cpa', 'Cpa.g.sc98.56' => 'cpa', 'Cpa.g.sc98.57' => 'cpa', 'Cre12.g483500' => 'cre', 'Cre17.g728250' => 'cre', 'Cre17.g730650' => 'cre', 'CsaV3_3G015400' => 'csa', 'CsaV3_3G049680' => 'csa', 'CSS0000923' => 'camsi', 'CSS0002593' => 'camsi', 'CSS0002752' => 'camsi', 'CSS0003551' => 'camsi', 'CSS0006256' => 'camsi', 'CSS0007978' => 'camsi', 'CSS0010968' => 'camsi', 'CSS0013829' => 'camsi', 'CSS0028347' => 'camsi', 'CSS0029198' => 'camsi', 'CSS0029324' => 'camsi', 'CSS0031966' => 'camsi', 'CSS0037314' => 'camsi', 'CSS0037793' => 'camsi', 'CSS0038348' => 'camsi', 'CSS0043115' => 'camsi', 'CSS0044917' => 'camsi', 'DCAR_000729' => 'dca', 'DCAR_023379' => 'dca', 'DCAR_026963' => 'dca', 'Dinv28897' => 'din', 'Dinv29544' => 'din', 'Duzib205G0058' => 'dzi', 'ECA246G3294' => 'eca', 'ECA247G3249' => 'eca', 'EL10Ac5g12216' => 'bvu', 'EL10Ac6g15714' => 'bvu', 'Eucgr.D02142' => 'egr', 'Eucgr.H04089' => 'egr', 'FAN04G0578' => 'fan', 'FAN08G1156' => 'fan', 'FAN12G2952' => 'fan', 'FAN13G3119' => 'fan', 'FAN17G2279' => 'fan', 'FAN18G3751' => 'fan', 'FvH4_4g20980' => 'fve', 'FvH4_5g20820' => 'fve', 'FvH4_6g24431' => 'fve', 'Glyma.07G233100' => 'gma', 'Glyma.11G039900' => 'gma', 'Glyma.18G115200' => 'gma', 'Gohir.A02G056800' => 'ghi', 'Gohir.A02G056802' => 'ghi', 'Gohir.A03G003250' => 'ghi', 'Gohir.A03G003300' => 'ghi', 'Gohir.A08G161600' => 'ghi', 'Gohir.A10G175801' => 'ghi', 'Gohir.A10G175901' => 'ghi', 'Gohir.D02G062000' => 'ghi', 'Gohir.D03G169032' => 'ghi', 'Gohir.D03G169100' => 'ghi', 'Gohir.D08G181600' => 'ghi', 'Gohir.D10G182400' => 'ghi', 'Gorai.002G180800' => 'gra', 'Gorai.003G179200' => 'gra', 'Gorai.004G190500' => 'gra', 'Gorai.005G069700' => 'gra', 'Gorai.011G204400' => 'gra', 'GSVIVG01013268001' => 'vvi', 'GSVIVG01013270001' => 'vvi', 'GSVIVG01017643001' => 'vvi', 'HanXRQChr01g0031031' => 'han', 'HanXRQChr10g0319861' => 'han', 'HanXRQChr10g0319871' => 'han', 'HanXRQChr17g0535661' => 'han', 'HanXRQChr17g0550251' => 'han', 'Haze_00816' => 'cav', 'Haze_00817' => 'cav', 'Haze_00818' => 'cav', 'Haze_00819' => 'cav', 'Haze_00820' => 'cav', 'Haze_00821' => 'cav', 'Haze_00822' => 'cav', 'Haze_00861' => 'cav', 'Haze_00862' => 'cav', 'Haze_08325' => 'cav', 'Haze_08327' => 'cav', 'Haze_08328' => 'cav', 'Haze_08330' => 'cav', 'Haze_08331' => 'cav', 'Haze_08332' => 'cav', 'HPP92_008100' => 'vpl', 'HPP92_008101' => 'vpl', 'HPP92_014877' => 'vpl', 'HPP92_014878' => 'vpl', 'HPP92_014884' => 'vpl', 'HPP92_014885' => 'vpl', 'HPP92_014922' => 'vpl', 'HPP92_014923' => 'vpl', 'HPP92_014924' => 'vpl', 'HPP92_014925' => 'vpl', 'HPP92_014930' => 'vpl', 'HPP92_014931' => 'vpl', 'HPP92_014932' => 'vpl', 'HPP92_015357' => 'vpl', 'Hund14458' => 'sun', 'Hund14463' => 'sun', 'Hund16354' => 'sun', 'Lalb_Chr12g0200731' => 'lal', 'Lalb_Chr13g0298791' => 'lal', 'Lalb_Chr13g0298811' => 'lal', 'Lalb_Chr13g0298821' => 'lal', 'Lalb_Chr13g0298831' => 'lal', 'Lalb_Chr13g0298841' => 'lal', 'Lalb_Chr16g0379281' => 'lal', 'Lj2A250T16' => 'lonja', 'Lj2A251G48' => 'lonja', 'Lj2A251T58' => 'lonja', 'Lj2g0026983' => 'lja', 'Lj2P251T20' => 'lonja', 'Lj4g0014122' => 'lja', 'Lj6A698G103' => 'lonja', 'Lj6A698G104' => 'lonja', 'Lj6C698G8' => 'lonja', 'Lsat_1_v5_gn_0_35581' => 'lsa', 'Lsat_1_v5_gn_0_47441' => 'lsa', 'Lsat_1_v5_gn_1_125581' => 'lsa', 'Lsat_1_v5_gn_1_40321' => 'lsa', 'Lsat_1_v5_gn_2_105500' => 'lsa', 'Lsat_1_v5_gn_2_114481' => 'lsa', 'Lsat_1_v5_gn_2_21761' => 'lsa', 'Lsat_1_v5_gn_2_72641' => 'lsa', 'Lsat_1_v5_gn_3_108261' => 'lsa', 'Lsat_1_v5_gn_3_12740' => 'lsa', 'Lsat_1_v5_gn_3_15101' => 'lsa', 'Lsat_1_v5_gn_3_15901' => 'lsa', 'Lsat_1_v5_gn_5_105281' => 'lsa', 'Lsat_1_v5_gn_5_182440' => 'lsa', 'Lsat_1_v5_gn_5_57700' => 'lsa', 'Lsat_1_v5_gn_6_101740' => 'lsa', 'Lsat_1_v5_gn_6_111140' => 'lsa', 'Lsat_1_v5_gn_7_81100' => 'lsa', 'Lsat_1_v5_gn_8_63821' => 'lsa', 'Lsat_1_v5_gn_9_61281' => 'lsa', 'Manes.03G209800' => 'mes', 'Manes.17G019783' => 'mes', 'Mapoly0037s0053' => 'mpo', 'Mapoly0076s0036' => 'mpo', 'Mapoly0076s0037' => 'mpo', 'Mapoly0105s0039' => 'mpo', 'MBI01_g02161_MAGBIO' => 'mbi', 'MBI01_g46566_MAGBIO' => 'mbi', 'MBI03_g02128_MAGBIO' => 'mbi', 'MBI04_g20740_MAGBIO' => 'mbi', 'MBI04_g20742_MAGBIO' => 'mbi', 'MBI04_g20743_MAGBIO' => 'mbi', 'MBI06_g46048_MAGBIO' => 'mbi', 'MBI07_g08155_MAGBIO' => 'mbi', 'MBI08_g30373_MAGBIO' => 'mbi', 'MBI09_g20573_MAGBIO' => 'mbi', 'MBI09_g39409_MAGBIO' => 'mbi', 'MBI10_g27924_MAGBIO' => 'mbi', 'MBI11_g45421_MAGBIO' => 'mbi', 'MBI11_g45422_MAGBIO' => 'mbi', 'MBI14_g25463_MAGBIO' => 'mbi', 'MBI14_g38380_MAGBIO' => 'mbi', 'MBI15_g22199_MAGBIO' => 'mbi', 'MBI16_g04050_MAGBIO' => 'mbi', 'MBI16_g23722_MAGBIO' => 'mbi', 'MBI16_g23723_MAGBIO' => 'mbi', 'MBI16_g23724_MAGBIO' => 'mbi', 'MBI16_g23725_MAGBIO' => 'mbi', 'MBI18_g13931_MAGBIO' => 'mbi', 'MBI18_g30380_MAGBIO' => 'mbi', 'MBI19_g17643_MAGBIO' => 'mbi', 'MBI19_g17644_MAGBIO' => 'mbi', 'MBI19_g46604_MAGBIO' => 'mbi', 'MCO01G330' => 'mco', 'MD04G1057200' => 'mdo', 'MD06G1043800' => 'mdo', 'MD13G1146800' => 'mdo', 'MD16G1145300' => 'mdo', 'MD16G1145600' => 'mdo', 'MD16G1156200' => 'mdo', 'MD16G1156300' => 'mdo', 'MD16G1156400' => 'mdo', 'MD16G1156500' => 'mdo', 'MD16G1156600' => 'mdo', 'Medtr1g008710' => 'mtr', 'Medtr4g123110' => 'mtr', 'Medtr5g013780' => 'mtr', 'MELO3C003359.2' => 'cme', 'MELO3C006741.2' => 'cme', 'Migut.E00809' => 'egut', 'Migut.E00810' => 'egut', 'Migut.G00017' => 'egut', 'MSTRG.1961' => 'ama', 'MSTRG.3839' => 'ama', 'Nitab4.5_0001255g0080' => 'nta', 'Nitab4.5_0001255g0090' => 'nta', 'Nitab4.5_0001708g0010' => 'nta', 'Nitab4.5_0001977g0050' => 'nta', 'Nitab4.5_0001977g0100' => 'nta', 'Nitab4.5_0001977g0110' => 'nta', 'Nitab4.5_0001977g0120' => 'nta', 'Nitab4.5_0006135g0030' => 'nta', 'Nitab4.5_0006135g0040' => 'nta', 'Nitab4.5_0007366g0010' => 'nta', 'Nitab4.5_0007366g0020' => 'nta', 'Nitab4.5_0007366g0030' => 'nta', 'Nitab4.5_0009459g0020' => 'nta', 'Nn1g00662' => 'nnu', 'Nn1g00699' => 'nnu', 'Nn2g14500' => 'nnu', 'Nn2g14501' => 'nnu', 'Nn2g14503' => 'nnu', 'Nn2g16048' => 'nnu', 'Nn3g21823' => 'nnu', 'Nn3g21824' => 'nnu', 'Nn4g22407' => 'nnu', 'Nn4g22408' => 'nnu', 'Oeu007576.1' => 'oeu', 'Oeu010093.1' => 'oeu', 'Oeu033616.1' => 'oeu', 'Oeu033911.2' => 'oeu', 'Oeu035103.1' => 'oeu', 'Os02g0470400' => 'osa', 'Os02g0470600' => 'osa', 'Os10g0565300' => 'osa', 'Os10g0565401' => 'osa', 'Peaxi162Scf00084g00118' => 'pax', 'Peaxi162Scf00084g00119' => 'pax', 'Peaxi162Scf00290g00039' => 'pax', 'Peaxi162Scf00290g00313' => 'pax', 'PGR004G1484' => 'pgr', 'PGR031G0629' => 'pgr', 'PGSC0003DMG400002706' => 'stu', 'PGSC0003DMG400029806' => 'stu', 'Phvul.002G003000' => 'pvu', 'Phvul.003G119100' => 'pvu', 'Potri.001G148800' => 'ptr', 'Potri.008G100600' => 'ptr', 'Pp3c17_9550' => 'ppa', 'Pp3c18_1370' => 'ppa', 'Pp3c18_1376' => 'ppa', 'Pp3c22_21110' => 'ppa', 'Pp3c9_20320' => 'ppa', 'PRCOL_00000265' => 'pco', 'PRCOL_00002060' => 'pco', 'Prupe.1G110200' => 'ppe', 'Prupe.3G141600' => 'ppe', 'Prupe.5G050700' => 'ppe', 'Psat0s45g0040' => 'psa', 'Psat0s45g0120' => 'psa', 'Psat2g175200' => 'psa', 'Psat2g175240' => 'psa', 'Psat2g175320' => 'psa', 'Psat7g224120' => 'psa', 'PSO063G3710' => 'pso', 'PSO170G4462' => 'pso', 'PSO210G0849' => 'pso', 'PSO210G1589' => 'pso', 'PSO210G3521' => 'pso', 'PSO761G0196' => 'pso', 'PSO782G0136' => 'pso', 'QL06p013490' => 'qlo', 'QL06p013529' => 'qlo', 'QL12p007921' => 'qlo', 'QL12p007950' => 'qlo', 'RcHm_v2.0_Chr2g0110921' => 'rch', 'RcHm_v2.0_Chr4g0407721' => 'rch', 'RcHm_v2.0_Chr4g0407731' => 'rch', 'RcHm_v2.0_Chr4g0407761' => 'rch', 'RcHm_v2.0_Chr4g0407781' => 'rch', 'RcHm_v2.0_Chr4g0426501' => 'rch', 'RcHm_v2.0_Chr7g0207821' => 'rch', 'Rhsim02G0045600' => 'rsi', 'Rhsim04G0245300' => 'rsi', 'Rhsim11G0008200' => 'rsi', 'Rhsim11G0008300' => 'rsi', 'Rhsim11G0008400' => 'rsi', 'Rhsim11G0008500' => 'rsi', 'Sabra01G0118800' => 'sbr', 'Sabra08G0076100' => 'sbr', 'Sabra10G0116900' => 'sbr', 'Sabra10G0117000' => 'sbr', 'SalBow8G3461' => 'sbo', 'SalBow8G5116' => 'sbo', 'Sc03g0001750' => 'sci', 'Sc07g0008990' => 'sci', 'Sc07g0009000' => 'sci', 'Sed0007068' => 'sed', 'Sed0011983' => 'sed', 'SEGI_00275' => 'sgi', 'SEGI_02242' => 'sgi', 'SEGI_04091' => 'sgi', 'SEGI_04511' => 'sgi', 'SEGI_12695' => 'sgi', 'SEGI_13064' => 'sgi', 'SEGI_16723' => 'sgi', 'SEGI_19754' => 'sgi', 'SEGI_28116' => 'sgi', 'SEGI_29217' => 'sgi', 'SEGI_31448' => 'sgi', 'SEGI_32127' => 'sgi', 'SEGI_33370' => 'sgi', 'SEGI_33569' => 'sgi', 'SEGI_34503' => 'sgi', 'SEGI_38876' => 'sgi', 'SGA_v2.0_scaffold157G37366' => 'sas', 'SGA_v2.0_scaffold20G09243' => 'sas', 'SHI00073' => 'shi', 'SHI00074' => 'shi', 'SHI00075' => 'shi', 'SHI00076' => 'shi', 'SHI00077' => 'shi', 'SHI00078' => 'shi', 'SHI00081' => 'shi', 'SHI00082' => 'shi', 'SHI07558' => 'shi', 'SHI07563' => 'shi', 'SHI07566' => 'shi', 'SHI07567' => 'shi', 'SHI07568' => 'shi', 'SHI07570' => 'shi', 'SHI07571' => 'shi', 'SHI07572' => 'shi', 'SHI07573' => 'shi', 'SHI07574' => 'shi', 'SHI07575' => 'shi', 'SHI07576' => 'shi', 'SMO240G0003' => 'smo', 'SMO240G0011' => 'smo', 'SMO240G0016' => 'smo', 'SMO240G0049' => 'smo', 'SMO340G0042' => 'smo', 'SMO356G0164' => 'smo', 'SMO356G0258' => 'smo', 'SMO361G0270' => 'smo', 'Solyc08g077490.2' => 'sly', 'Solyc08g077500.4' => 'sly', 'Solyc09g009350.2' => 'sly', 'Solyc09g009370.4' => 'sly', 'Solyc12g015840.3' => 'sly', 'Sopen08g026080' => 'spe', 'Sopen09g004100' => 'spe', 'Sp1g35040' => 'spa', 'Sp7g17050' => 'spa', 'TAR362G0616' => 'tar', 'TAR629G2120' => 'tar', 'THA.LOC104802610' => 'tha', 'THA.LOC104814451' => 'tha', 'Thecc.03G019800' => 'tca', 'Thecc.03G236900' => 'tca', 'Thecc.04G308400' => 'tca', 'Thhalv10011170m.g' => 'esa', 'Thhalv10024176m.g' => 'esa', 'TPR.G12636' => 'tpr', 'TPR.G33938' => 'tpr', 'TPR.G39871' => 'tpr', 'TWI60G0589' => 'twi', 'TWI73G1237' => 'twi', 'unitig_0.g1657' => 'ugi', 'unitig_0.g1658' => 'ugi', 'unitig_0.g1659' => 'ugi', 'unitig_0.g1660' => 'ugi', 'unitig_0.g1661' => 'ugi', 'unitig_17.g29361' => 'ugi', 'unitig_17.g29362' => 'ugi', 'unitig_17.g29363' => 'ugi', 'unitig_17.g29364' => 'ugi', 'unitig_17.g29365' => 'ugi', 'unitig_17.g29366' => 'ugi', 'unitig_21.g20375' => 'ugi', 'unitig_578.g15844' => 'ugi', 'unitig_578.g15845' => 'ugi', 'unitig_578.g15846' => 'ugi', 'unitig_8.g4076' => 'ugi', 'unitig_8.g4077' => 'ugi', 'unitig_8.g4078' => 'ugi', 'unitig_8.g4079' => 'ugi', 'unitig_8.g4080' => 'ugi', 'unitig_82.g26960' => 'ugi', 'unitig_82.g26961' => 'ugi', 'unitig_82.g26962' => 'ugi', 'unitig_82.g26963' => 'ugi', 'unitig_82.g26964' => 'ugi', 'unitig_82.g26965' => 'ugi', 'unitig_94.g28287' => 'ugi', 'unitig_94.g28288' => 'ugi', 'vmacro00375' => 'vma', 'vmacro07983' => 'vma', 'vmacro07984' => 'vma', 'vmacro07985' => 'vma', 'vmacro07986' => 'vma', 'VMungo1215G1951' => 'vmu', 'Zm00001eb203050' => 'zma', 'Zm00001eb203060' => 'zma', 'Zm00001eb203070' => 'zma', 'Zm00001eb203090' => 'zma', 'Zm00001eb390790' => 'zma' ) $gf_id = 'HOM05D001092' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001092' ) $data_identifier = 'HOM05D001092' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 5, 'aag' => (int) 3, 'ach' => (int) 13, 'amhyb' => (int) 2, 'aly' => (int) 2, 'aox' => (int) 12, 'arhy' => (int) 14, 'ath' => (int) 2, 'atr' => (int) 8, 'acertr' => (int) 6, 'cqu' => (int) 4, 'bca' => (int) 7, 'bol' => (int) 3, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 2, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 11, 'cbr' => (int) 2, 'ccan' => (int) 2, 'cde' => (int) 10, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 3, 'cla' => (int) 3, 'col' => (int) 5, 'cpa' => (int) 19, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 17, 'dca' => (int) 3, 'din' => (int) 2, 'dzi' => (int) 1, 'eca' => (int) 2, 'bvu' => (int) 2, 'egr' => (int) 2, 'fan' => (int) 6, 'fve' => (int) 3, 'gma' => (int) 3, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 5, 'cav' => (int) 15, 'vpl' => (int) 14, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 2, 'lsa' => (int) 20, 'mes' => (int) 2, 'mpo' => (int) 4, 'mbi' => (int) 27, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 3, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 10, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 2, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppa' => (int) 5, 'pco' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 7, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 2, 'sgi' => (int) 16, 'sas' => (int) 2, 'shi' => (int) 20, 'smo' => (int) 8, 'sly' => (int) 5, 'spe' => (int) 2, 'spa' => (int) 2, 'tar' => (int) 2, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 2, 'tpr' => (int) 3, 'twi' => (int) 2, 'ugi' => (int) 28, 'vma' => (int) 5, 'vmu' => (int) 1, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb390790' $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